This article is part of the supplement: EADGENE and SABRE Post-analyses Workshop

Open Access Research

Microarray data mining using Bioconductor packages

Haisheng Nie1, Pieter BT Neerincx2, Jan van der Poel1, Francesco Ferrari3, Silvio Bicciato4, Jack AM Leunissen2 and Martien AM Groenen1*

Author Affiliations

1 Animal Breeding and Genomics Centre, Wageningen University, Marijkeweg 40, P.O. Box 338, 6700 AH, Wageningen, The Netherlands

2 Laboratory of Bioinformatics, Wageningen University, Dreijenlaan 3, P.O. Box 569, 6700 AN, Wageningen, The Netherlands

3 Department of Biology, University of Padova, Via G. Colombo 3, 35121, Padova, Italy

4 Department of Biomedical Sciences, University of Modena and Reggio Emilia, via Campi 287, 41100, Modena, Italy

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BMC Proceedings 2009, 3(Suppl 4):S9  doi:10.1186/1753-6561-3-S4-S9

Published: 16 July 2009

Additional files

Additional file 1:

GO enrichment analysis results with selected immune related GO terms. This table shows GO enrichment results with selected GO_BP terms. (For contrasts MM8.PM8 and MM8.MM24 results, only immune-related GO_BP terms which have at least two genes linked to each one of them were included).

Format: XLS Size: 25KB Download file

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Additional file 2:

GO term enrichment results (raw p-value <0.05) using chicken genes. This table shows the GO enrichment analysis results using chicken gene information.

Format: XLS Size: 51KB Download file

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Additional file 3:

GO term enrichment results (raw p-value < 0.05) using chicken-human orthologous genes. This table shows the GO term enrichment analysis results using chicken-human orthologous genes information.

Format: XLS Size: 57KB Download file

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Additional file 4:

Differentially expressed chromosomal regions for MM8-PM8 contrast. This table shows the chromosomal locations of three up-regulated chromosomal regions and one down-regulated chromosomal region for MM8-PM8 contrast.

Format: XLS Size: 1KB Download file

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Open Data